Locus 11742

Sequence ID dm3.chr3R
Location 23,431,275 – 23,431,368
Length 93
Max. P 0.970494
window16136 window16137

overview

Window 6

Location 23,431,275 – 23,431,368
Length 93
Sequences 5
Columns 93
Reading direction forward
Mean pairwise identity 90.85
Shannon entropy 0.16010
G+C content 0.49448
Mean single sequence MFE -30.54
Consensus MFE -26.54
Energy contribution -27.62
Covariance contribution 1.08
Combinations/Pair 1.14
Mean z-score -2.40
Structure conservation index 0.87
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.83
SVM RNA-class probability 0.970494
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 23431275 93 + 27905053
AUAAGCGGACACACACCGCUGAUAAGGCCAUGCCCUUAUCACUGCUCAAUUUGAGCGGACAAGUGUGUGGCCCCGGAAUUUAUGGCCCGCUAA
...(((((.(((((((...((((((((......))))))))((((((.....))))))....)))))))(((...........)))))))).. ( -39.10, z-score =  -4.39, R)
>droSim1.chr3R 23163482 93 + 27517382
AUAAGCGGACACACACCGCUGAUAAGACCAUGCCCUUAUCACUGCUCAAUUUGAGCGGACAAGUGUGUGGCCCCGGAAUUUAUGGCCUGCUAA
...(((((.(((((((...(((((((........)))))))((((((.....))))))....)))))))(((...........)))))))).. ( -34.20, z-score =  -3.78, R)
>droSec1.super_22 67830 93 + 1066717
AUAAGCGGACACACACCGCUGAUAAGGCCAUGCUCUUAUCACUGCUCAAUUUGAGCGGACAAGUGUGUGGCCCCGGAAUUUAUGGCCUGCUAA
...(((((.(((((((...(((((((((...)).)))))))((((((.....))))))....)))))))(((...........)))))))).. ( -35.50, z-score =  -3.36, R)
>droYak2.chr3R 5775756 92 - 28832112
AUAAGCGGACACUCACUGCUGAUAAGGCCA-GUCCUUAUCACUCCUCAAUUUGAGCGGACAUGUGUGUGGCCCCGGAAUUUAUGGCCCGUUAA
...(((((.(((.(((((.((((((((...-..))))))))((.(((.....))).)).)).))).)))(((...........)))))))).. ( -26.70, z-score =  -0.94, R)
>droEre2.scaffold_4820 5863291 92 - 10470090
AUAAGCAAAAUCUCAUUGCUGAUAAGACCA-GCCCUUAUCACUUAUCAAUUUGAGCGGACAAGUGUGCGGCCCCGGAAUUUAUGGCCUACUAA
...(((((.......)))))((((((....-...))))))..............(((.(....).)))((((...........))))...... ( -17.20, z-score =   0.49, R)
>consensus
AUAAGCGGACACACACCGCUGAUAAGGCCAUGCCCUUAUCACUGCUCAAUUUGAGCGGACAAGUGUGUGGCCCCGGAAUUUAUGGCCUGCUAA
...(((((.(((((((...(((((((........)))))))((((((.....))))))....)))))))(((...........)))))))).. (-26.54 = -27.62 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 23,431,275 – 23,431,368
Length 93
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 90.85
Shannon entropy 0.16010
G+C content 0.49448
Mean single sequence MFE -30.62
Consensus MFE -24.66
Energy contribution -25.78
Covariance contribution 1.12
Combinations/Pair 1.17
Mean z-score -1.62
Structure conservation index 0.81
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.04
SVM RNA-class probability 0.514384
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 23431275 93 - 27905053
UUAGCGGGCCAUAAAUUCCGGGGCCACACACUUGUCCGCUCAAAUUGAGCAGUGAUAAGGGCAUGGCCUUAUCAGCGGUGUGUGUCCGCUUAU
..(((((((((((....(((((((((....(((((((((((.....)))).).))))))....))))))......))))))).)))))))... ( -38.00, z-score =  -2.93, R)
>droSim1.chr3R 23163482 93 - 27517382
UUAGCAGGCCAUAAAUUCCGGGGCCACACACUUGUCCGCUCAAAUUGAGCAGUGAUAAGGGCAUGGUCUUAUCAGCGGUGUGUGUCCGCUUAU
..(((.((((...........))))((((((....((((((.....))))..((((((((......))))))))..)).))))))..)))... ( -31.80, z-score =  -1.78, R)
>droSec1.super_22 67830 93 - 1066717
UUAGCAGGCCAUAAAUUCCGGGGCCACACACUUGUCCGCUCAAAUUGAGCAGUGAUAAGAGCAUGGCCUUAUCAGCGGUGUGUGUCCGCUUAU
..(((.((((...........))))((((((....((((((.....))))..(((((((.((...)))))))))..)).))))))..)))... ( -32.60, z-score =  -2.12, R)
>droYak2.chr3R 5775756 92 + 28832112
UUAACGGGCCAUAAAUUCCGGGGCCACACACAUGUCCGCUCAAAUUGAGGAGUGAUAAGGAC-UGGCCUUAUCAGCAGUGAGUGUCCGCUUAU
....((((........))))((((.((.(((.(((..((((........))))(((((((..-...))))))).)))))).))))))...... ( -27.00, z-score =  -0.77, R)
>droEre2.scaffold_4820 5863291 92 + 10470090
UUAGUAGGCCAUAAAUUCCGGGGCCGCACACUUGUCCGCUCAAAUUGAUAAGUGAUAAGGGC-UGGUCUUAUCAGCAAUGAGAUUUUGCUUAU
...((.((((...........)))))).((((((((..........))))))))....((((-.((((((((.....))))))))..)))).. ( -23.70, z-score =  -0.51, R)
>consensus
UUAGCAGGCCAUAAAUUCCGGGGCCACACACUUGUCCGCUCAAAUUGAGCAGUGAUAAGGGCAUGGCCUUAUCAGCGGUGUGUGUCCGCUUAU
..(((((((((((......(((((((....(((((((((((.....)))).).))))))....)))))))........)))).)))))))... (-24.66 = -25.78 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:48:45 2011